Re: [mitk-users] Are there mitk build for centos 7?
Hi Sam, unfortunately its is not possible to build MITK statically. But you can create a package using cpack. If you built the cmdapps on your system, you can call "make package". This will generate a tarball with the binaries and all necessary libraries. You could try to run this on you server. If you are building command line binaries only, vtk is still needed. Peter Von: Samuel St-Jean <stjean...@gmail.com> Gesendet: Dienstag, 12. Dezember 2017 14:52 An: Neher, Peter Cc: Alex Valcourt Caron; mitk-users@lists.sourceforge.net Betreff: Re: [mitk-users] Are there mitk build for centos 7? Ah well, I tried to play a bit more with it, but the server is just missing everything. After installing a recent cmake, compiling a custom gcc and a few dependencies, it seems like the build won't start due to missing x11 libs and headers, then due to libwrap and tcdp.h and probably something else later. I think that these things are needed for vtk somewhere, even though I tried to uncheck everything to the bare minimum (including qt of course). I thought that vtk would be pulled with the superbuild or something, but it did not go that far unfortunately with all those missing libs. Would a command line only option rely on x11/internet stuff somewhere deep or am I just missing too much base stuff and should try to hassle someone to install more stuff on the server (unlikely, but I can try). --- Well actually seems like the superbuild needs these thing to fetch them from internet, and deactivating it instead complains on me missing everything else of course. I think I'll try to build myself a static build on a vm or a container or something instead now. Hopefully it does work after that, more news if I get around it. 2017-12-12 7:20 GMT+01:00 Neher, Peter <p.ne...@dkfz-heidelberg.de<mailto:p.ne...@dkfz-heidelberg.de>>: Hi Sam and Alex, I agree with Alex. I will add a build configuration for a commandline-only build to make this easier. Peter Von: Alex Valcourt Caron [mailto:alex.valcourt.ca...@usherbrooke.ca<mailto:alex.valcourt.ca...@usherbrooke.ca>] Gesendet: Montag, 11. Dezember 2017 18:41 An: Samuel St-Jean <stjean...@gmail.com<mailto:stjean...@gmail.com>>; mitk-users@lists.sourceforge.net<mailto:mitk-users@lists.sourceforge.net> Betreff: Re: [mitk-users] Are there mitk build for centos 7? Hi Samuel, it is possible to install a standalone command line app of Fiberfox to do simulation on already created tractograms and dwi images, as the ones you can create with the design tools of Fiberfox. You will also require a specific parameter file in order to configure the simulations. You can parametrize it from the graphical interface of Fiberfox, then save it to use in the command line app. The installation of the app with the good dependencies, but without all the Qt dependencies is however a bit of a hurdle. I was able to accomplish it by doing this : - First enable the Cmake option MITK_BUILD_CONFIGURATION to mitkDiffusion (or DiffusionRelease or DiffusionWorkbench, etc ..) and start a configure step. - This will activate the required inner and outer ibraries for the linking step of the build to work. It however also enables all graphic applications, so in order to clear all Qt related build steps, you will need first to place back the option MITK_BUILD_CONFIGURATION to custom. - Then, deselect all of the Applications (MITK_BUILD_APP_* options) and deselect or empty all options related to Qt. I also suggest you not to build Shared Libs and Testing, targets which can depend on Qt even when building without it. - Configure, check that no Qt dependencies or path are present in the options, Generate and start building ! Alex De : Samuel St-Jean <stjean...@gmail.com<mailto:stjean...@gmail.com>> Envoyé : 11 décembre 2017 11:23:26 À : mitk-users@lists.sourceforge.net<mailto:mitk-users@lists.sourceforge.net> Objet : Re: [mitk-users] Are there mitk build for centos 7? Hello, I see that there are new builds for ubuntu 14.04 and 16.04, but unfortunately the glibc from cent 7 is a bit older. As I was trying to run some fiberfox simulations with motion and all, it made my computer swap by using over 19 GB of ram. Of course we have servers for heavy duty stuff, but they are too old for the released version of mitk diffusion. I tried building it some time ago from source, but getting qt running was just too much of a hurdle since stuff can't be easily installed on these servers. So for the actual questions : - Is there a build for older glibc somewhere which might not have reached the download page? - Say I just go without building the qt interface (which I tried while writing this, and it needs cmake 3.5, whereas I have 3.3.1, so too bad for now :/) Well anyway, what are the easy
Re: [mitk-users] Are there mitk build for centos 7?
Ah well, I tried to play a bit more with it, but the server is just missing everything. After installing a recent cmake, compiling a custom gcc and a few dependencies, it seems like the build won't start due to missing x11 libs and headers, then due to libwrap and tcdp.h and probably something else later. I think that these things are needed for vtk somewhere, even though I tried to uncheck everything to the bare minimum (including qt of course). I thought that vtk would be pulled with the superbuild or something, but it did not go that far unfortunately with all those missing libs. Would a command line only option rely on x11/internet stuff somewhere deep or am I just missing too much base stuff and should try to hassle someone to install more stuff on the server (unlikely, but I can try). --- Well actually seems like the superbuild needs these thing to fetch them from internet, and deactivating it instead complains on me missing everything else of course. I think I'll try to build myself a static build on a vm or a container or something instead now. Hopefully it does work after that, more news if I get around it. 2017-12-12 7:20 GMT+01:00 Neher, Peter <p.ne...@dkfz-heidelberg.de>: > Hi Sam and Alex, > > > > I agree with Alex. I will add a build configuration for a commandline-only > build to make this easier. > > > > Peter > > > > > > *Von:* Alex Valcourt Caron [mailto:alex.valcourt.ca...@usherbrooke.ca] > *Gesendet:* Montag, 11. Dezember 2017 18:41 > *An:* Samuel St-Jean <stjean...@gmail.com>; mitk-users@lists.sourceforge. > net > *Betreff:* Re: [mitk-users] Are there mitk build for centos 7? > > > > Hi Samuel, > > > > it is possible to install a standalone command line app of Fiberfox to do > simulation on already created tractograms and dwi images, as the ones you > can create with the design tools of Fiberfox. You will also require a > specific parameter file in order to configure the simulations. You can > parametrize it from the graphical interface of Fiberfox, then save it to > use in the command line app. > > > > The installation of the app with the good dependencies, but without all > the Qt dependencies is however a bit of a hurdle. I was able to accomplish > it by doing this : > > - First enable the Cmake option MITK_BUILD_CONFIGURATION to mitkDiffusion > (or DiffusionRelease or DiffusionWorkbench, etc ..) and start a configure > step. > > - This will activate the required inner and outer ibraries for the linking > step of the build to work. It however also enables all graphic > applications, so in order to clear all Qt related build steps, you will > need first to place back the option MITK_BUILD_CONFIGURATION to custom. > > - Then, deselect all of the Applications (MITK_BUILD_APP_* options) and > deselect or empty all options related to Qt. I also suggest you not to > build Shared Libs and Testing, targets which can depend on Qt even when > building without it. > > - Configure, check that no Qt dependencies or path are present in the > options, Generate and start building ! > > > > Alex > ---------- > > *De :* Samuel St-Jean <stjean...@gmail.com> > *Envoyé :* 11 décembre 2017 11:23:26 > *À :* mitk-users@lists.sourceforge.net > *Objet :* Re: [mitk-users] Are there mitk build for centos 7? > > > > Hello, > > I see that there are new builds for ubuntu 14.04 and 16.04, but > unfortunately the glibc from cent 7 is a bit older. As I was trying to run > some fiberfox simulations with motion and all, it made my computer swap by > using over 19 GB of ram. Of course we have servers for heavy duty stuff, > but they are too old for the released version of mitk diffusion. > > I tried building it some time ago from source, but getting qt running was > just too much of a hurdle since stuff can't be easily installed on these > servers. So for the actual questions : > > - Is there a build for older glibc somewhere which might not have reached > the download page? > > - Say I just go without building the qt interface (which I tried while > writing this, and it needs cmake 3.5, whereas I have 3.3.1, so too bad for > now :/) > > Well anyway, what are the easy options for running on servers that people > are using? > > Thanks, > > Samuel > -- Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot___ mitk-users mailing list mitk-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mitk-users
Re: [mitk-users] Are there mitk build for centos 7?
Hi Sam and Alex, I agree with Alex. I will add a build configuration for a commandline-only build to make this easier. Peter Von: Alex Valcourt Caron [mailto:alex.valcourt.ca...@usherbrooke.ca] Gesendet: Montag, 11. Dezember 2017 18:41 An: Samuel St-Jean <stjean...@gmail.com>; mitk-users@lists.sourceforge.net Betreff: Re: [mitk-users] Are there mitk build for centos 7? Hi Samuel, it is possible to install a standalone command line app of Fiberfox to do simulation on already created tractograms and dwi images, as the ones you can create with the design tools of Fiberfox. You will also require a specific parameter file in order to configure the simulations. You can parametrize it from the graphical interface of Fiberfox, then save it to use in the command line app. The installation of the app with the good dependencies, but without all the Qt dependencies is however a bit of a hurdle. I was able to accomplish it by doing this : - First enable the Cmake option MITK_BUILD_CONFIGURATION to mitkDiffusion (or DiffusionRelease or DiffusionWorkbench, etc ..) and start a configure step. - This will activate the required inner and outer ibraries for the linking step of the build to work. It however also enables all graphic applications, so in order to clear all Qt related build steps, you will need first to place back the option MITK_BUILD_CONFIGURATION to custom. - Then, deselect all of the Applications (MITK_BUILD_APP_* options) and deselect or empty all options related to Qt. I also suggest you not to build Shared Libs and Testing, targets which can depend on Qt even when building without it. - Configure, check that no Qt dependencies or path are present in the options, Generate and start building ! Alex De : Samuel St-Jean <stjean...@gmail.com<mailto:stjean...@gmail.com>> Envoyé : 11 décembre 2017 11:23:26 À : mitk-users@lists.sourceforge.net<mailto:mitk-users@lists.sourceforge.net> Objet : Re: [mitk-users] Are there mitk build for centos 7? Hello, I see that there are new builds for ubuntu 14.04 and 16.04, but unfortunately the glibc from cent 7 is a bit older. As I was trying to run some fiberfox simulations with motion and all, it made my computer swap by using over 19 GB of ram. Of course we have servers for heavy duty stuff, but they are too old for the released version of mitk diffusion. I tried building it some time ago from source, but getting qt running was just too much of a hurdle since stuff can't be easily installed on these servers. So for the actual questions : - Is there a build for older glibc somewhere which might not have reached the download page? - Say I just go without building the qt interface (which I tried while writing this, and it needs cmake 3.5, whereas I have 3.3.1, so too bad for now :/) Well anyway, what are the easy options for running on servers that people are using? Thanks, Samuel -- Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot___ mitk-users mailing list mitk-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mitk-users
Re: [mitk-users] Are there mitk build for centos 7?
Hi Samuel, it is possible to install a standalone command line app of Fiberfox to do simulation on already created tractograms and dwi images, as the ones you can create with the design tools of Fiberfox. You will also require a specific parameter file in order to configure the simulations. You can parametrize it from the graphical interface of Fiberfox, then save it to use in the command line app. The installation of the app with the good dependencies, but without all the Qt dependencies is however a bit of a hurdle. I was able to accomplish it by doing this : - First enable the Cmake option MITK_BUILD_CONFIGURATION to mitkDiffusion (or DiffusionRelease or DiffusionWorkbench, etc ..) and start a configure step. - This will activate the required inner and outer ibraries for the linking step of the build to work. It however also enables all graphic applications, so in order to clear all Qt related build steps, you will need first to place back the option MITK_BUILD_CONFIGURATION to custom. - Then, deselect all of the Applications (MITK_BUILD_APP_* options) and deselect or empty all options related to Qt. I also suggest you not to build Shared Libs and Testing, targets which can depend on Qt even when building without it. - Configure, check that no Qt dependencies or path are present in the options, Generate and start building ! Alex De : Samuel St-Jean <stjean...@gmail.com> Envoyé : 11 décembre 2017 11:23:26 À : mitk-users@lists.sourceforge.net Objet : Re: [mitk-users] Are there mitk build for centos 7? Hello, I see that there are new builds for ubuntu 14.04 and 16.04, but unfortunately the glibc from cent 7 is a bit older. As I was trying to run some fiberfox simulations with motion and all, it made my computer swap by using over 19 GB of ram. Of course we have servers for heavy duty stuff, but they are too old for the released version of mitk diffusion. I tried building it some time ago from source, but getting qt running was just too much of a hurdle since stuff can't be easily installed on these servers. So for the actual questions : - Is there a build for older glibc somewhere which might not have reached the download page? - Say I just go without building the qt interface (which I tried while writing this, and it needs cmake 3.5, whereas I have 3.3.1, so too bad for now :/) Well anyway, what are the easy options for running on servers that people are using? Thanks, Samuel -- Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot___ mitk-users mailing list mitk-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mitk-users
Re: [mitk-users] Are there mitk build for centos 7?
Hello, I see that there are new builds for ubuntu 14.04 and 16.04, but unfortunately the glibc from cent 7 is a bit older. As I was trying to run some fiberfox simulations with motion and all, it made my computer swap by using over 19 GB of ram. Of course we have servers for heavy duty stuff, but they are too old for the released version of mitk diffusion. I tried building it some time ago from source, but getting qt running was just too much of a hurdle since stuff can't be easily installed on these servers. So for the actual questions : - Is there a build for older glibc somewhere which might not have reached the download page? - Say I just go without building the qt interface (which I tried while writing this, and it needs cmake 3.5, whereas I have 3.3.1, so too bad for now :/) Well anyway, what are the easy options for running on servers that people are using? Thanks, Samuel -- Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot___ mitk-users mailing list mitk-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mitk-users
